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  1. PIRSF (View Publication)
    Full Name of the Resource : Family/superfamily classification of whole proteins
    Resource Category : Databases -> Protein Sequence Databases -> Protein Domain Databases (Protein Classification)

    Brief Description : The PIRSF is a network system of protein classification that reflects evolutionary relationships of full-length proteins and domains. The PIRSF classification system accommodates a flexible number of levels that reflect varying degrees of sequence conservation from superfamily to subfamily levels, allowing improved protein annotation, more accurate extraction of conserved functional residues, and classification of distantly related orphan proteins. The primary PIRSF classification unit is the homeomorphic family, whose members are both homologous (evolved from a common ancestor) and homeomorphic (sharing full-length sequence similarity and a common domain architecture). The PIRSF database consists of two data sets, preliminary clusters and curated families. PIRSF families are curated systematically based on literature review and integrative sequence and functional analysis, including sequence and structure similarity, domain architecture, functional association, genome context, and phyletic pattern. The results of classification and expert annotation are summarized in PIRSF family reports with graphical viewers for taxonomic distribution, domain architecture, family hierarchy, and multiple alignment and phylogenetic tree. The PIRSF system provides a comprehensive resource for bioinformatics analysis and comparative studies of protein function and evolution. Domain searches allow identification of evolutionarily related protein families sharing domains or structural folds. Functional convergence and functional divergence are revealed by the relationships between protein classification and curated family functions. The taxonomic distribution allows the identification of lineage-specific or broadly conserved protein families and can reveal horizontal gene transfer. PIRSF is accessible from the web site at for report retrieval and sequence classification, and the data sets can be downloaded at
    Subject Area : Family Classification

    Institute/s :
    Department of Biochemistry and Molecular Biology, Georgetown University Medical Center, Washington, USA
    Address of Institute/s :
    Department of Biochemistry and Molecular Biology, Georgetown University Medical Center, Washington, DC 20057, USA
    Country : United States

    Associated Institutes :

    • Department of Biochemistry and Molecular Biology
    • National Biomedical Research Foundation, Georgetown University Medical Center, 3900 Reservoir Road, NW, Box 571414, Washington, DC 20057?1414, USA

    Associated Country : USA

    Authors/Contributors : Wu, C. H.
    Contact Email :
    Year : 2004
    Language : English

    Keywords : Preotein Function, Family Classification